Rs6679677

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is asnp
is mentioned by
dbSNPrs6679677
nextbiors6679677
hapmaprs6679677
1000 genomesrs6679677
hgdprs6679677
ensemblrs6679677
gopubmedrs6679677
scholarrs6679677
googlers6679677
pharmgkbrs6679677
gwascentralrs6679677
openSNPrs6679677
23andMers6679677
23andMe allrs6679677
SNP Nexus

SNPshotrs6679677
SNPdbers6679677
MSV3drs6679677
GeneRSBN1
Chromosome1
Orientationplus
Position114303808
ReferenceGRCh37 37.1/131
Max Magnitude3
Geno Mag Summary
(A;A) 3 5.2x risk for T1D; 3.3x for RA
(A;C) 2.3 1.8x risk for T1D; 2x risk for RA
(C;C) 0 normal
? (A;A) (A;C) (C;C) 28
rs6679677 has been reported in a large study to be associated with rheumatoid arthritis.

The risk allele (oriented to the dbSNP entry) is (A); the odds ratio associated with heterozygotes is 1.98 (CI 1.72-2.27), and for homozygotes, 3.32 (CI 1.93-5.69). [PMID 17554300]

rs6679677 was also reported in the same study to be associated with type-1 diabetes. The risk allele (oriented to the dbSNP entry) is (A); the odds ratio associated with heterozygotes is 1.82 (CI 1.59-2.09), and for homozygotes, 5.19 (CI 3.15-8.55). [PMID 17554300]

Recently (Feb 2008), it has been asserted that the association between rs6679677 and type-1 diabetes is actually completely due to a closely linked, potentially causal variant identified as rs2476601, which is also known as Arg620Trp. In this study, apparently the largest to date, the odds ratio for the risk allele (of rs6679677) was reported to be 1.88 (CI: 1.66-2.13).[PMID 18305142]

DeCode reports that the CC genotype is associated with 1.05x higher odds of Crohn's disease. [PMID 18587394]

GWAS snp
PMID [PMID 18978792]
Trait Type 1 diabetes
Title Meta-analysis of genome-wide association study data identifies additional type 1 diabetes risk loci
Risk Allele A
P-val 1E-40
Odds Ratio NR NR
GWAS snp
PMID [PMID 18794853]
Trait Rheumatoid arthritis
Title Common variants at CD40 and other loci confer risk of rheumatoid arthritis
Risk Allele
P-val 6.0000000000000005E-42
Odds Ratio 1.79 [1.65-1.94]
GWAS snp
PMID [PMID 17554260]
Trait Type 1 diabetes
Title Robust associations of four new chromosome regions from genome-wide analyses of type 1 diabetes
Risk Allele A
P-val 7.9999999999999994E-24
Odds Ratio 1.89 [1.67-2.13]


[PMID 19565500] Variants in TNFAIP3, STAT4, and C12orf30 loci associated with multiple autoimmune diseases are also associated with juvenile idiopathic arthritis

PharmGKBPA164740752
Name
AnnotationGWAS results: Meta-analysis of genome-wide association study data identifies additional type 1 diabetes risk loci. (Initial Sample Size: 3,561 cases, 4,646 controls; Replication Sample Size: 6,225 cases, 6,946 controls, 3,064 trios); (Region: 1p13.2; Reported Gene(s): PTPN22; Risk Allele: rs6679677-A); (p-value= 1E-40).This variant is associated with Type 1 diabetes.
GenePHTF1, RSBN1
Featue
EvidencePubMed ID:18978792; Web Resource:http://www.genome.gov/gwastudies/
Drugs
DiseasesDiabetes Mellitus, Diabetes Mellitus, Type 1
Curation LevelNon-Curated
PharmGKBPA162355905
Name
AnnotationA genome-wide association study in 2,000 individuals for each of 7 major diseases and a shared set of 3,000 controls found an association of this SNP with type 1 diabetes.
GenePHTF1, RSBN1
Featue
EvidencePubMed ID:17554300
Drugs
DiseasesDiabetes Mellitus, Type 1
Curation LevelCurated


[PMID 22493691] Novel associations for hypothyroidism include known autoimmune risk Loci.

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